The DNA (ng range) to stain is most probably denaturalized ssDNA (Urea/SDS backextraction from the TRIZOL inter-phase) and it's blotted on a positively charged Nylon membrane.
A dsDNA antibody recognizes other samples, but not this particular dots, while 5mC-antibody gives good signal.
I already tried methylene blue, but the staining is not sensitive enough and gives high background.
Next I tried 1xSYBR GOLD in 1xTAE. There are controversial comments out there in the web. To some it seems to stain well, while others comment that it doesn't work.
It seems that it works well for southern blot using the DNA previously stained in the gel before transfer, but not incubating the membrane (that stains entirely in my hands).
There is info about SYBR DX stain specifically for membranes (from Molecular Probes/Lifetechnologies) but it seems to be discontinued.
Does anyone have tips to get SYBR Gold working or any alternative method/protocol?
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